Version of Orthofinder?

[skitchen19]

I have tried to run OrthoFiller.py (v1.1.4) with OrthoFinder version 2.2.7 and 2.3.3 with the sample data. In both cases after OthoFinder finishes I get the following: output_folder/sequences/aa Can't find Orthogroup output file... exiting...

I can confirm that the output directory "aa" contains the OrthoFinder output directory. 2445872 Dec 9 13:33 Ashgo1_1_AssemblyScaffolds.fasta.aa.fasta 3150717 Dec 9 13:33 Debha1_AssemblyScaffolds.fasta.aa.fasta 2579674 Dec 9 13:34 Klula1_AssemblyScaffolds.fasta.aa.fasta 4096 Dec 9 13:34 OrthoFinder 3023784 Dec 9 13:33 Sacce_S288C.genome.nomt.fa.aa.fasta 3292120 Dec 9 13:33 Yarli1_AssemblyScaffolds.fasta.aa.fasta I believe this is a OrthoFinder version difference because the newer versions of do not produce OrthologousGroups.csv or Orthogroups.csv files but OrthologousGroups.tsv and Orthogroups.tsv.

Can you provide the best version of OrthoFinder to use with OrthoFiller?

[xonq]

You are correct about this error. I have an updated version of OrthoFiller at https://gitlab.com/xonq/OrthoFiller that addresses these dependency issues and others.